3iqz - Revision history

OCA at 16:02, 1 November 2023

2023-11-01T16:02:26Z

←Older revision		Revision as of 16:02, 1 November 2023
Line 3:		Line 3:
	<StructureSection load='3iqz' size='340' side='right'caption='[[3iqz]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='3iqz' size='340' side='right'caption='[[3iqz]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3iqz]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Dsm_6324 Dsm 6324~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IQZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3IQZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3iqz]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanopyrus_kandleri Methanopyrus kandleri]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IQZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3IQZ FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=H4M:5,10~~-~~DIMETHYLENE+TETRAHYDROMETHANOPTERIN'>H4M</scene>~~, ~~<scene name='pdbligand=NA:SODIUM+ION'>NA</scene>~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.1Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[3iqe\|3iqe]], [[3iqf\|3iqf]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=H4M:5,10-DIMETHYLENE+TETRAHYDROMETHANOPTERIN'>H4M</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td><~~td class~~=~~"sblockDat">mtd ([https~~:~~//www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=~~5~~&id=2320 DSM 6324])</td~~></tr>	+
-	<~~tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>[https://en.wikipedia.org/wiki/Methylenetetrahydromethanopterin_dehydrogenase Methylenetetrahydromethanopterin dehydrogenase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.5.98.1 1.5.98.1] </~~span~~></td></tr>	+
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3iqz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3iqz OCA], [https://pdbe.org/3iqz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3iqz RCSB], [https://www.ebi.ac.uk/pdbsum/3iqz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3iqz ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3iqz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3iqz OCA], [https://pdbe.org/3iqz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3iqz RCSB], [https://www.ebi.ac.uk/pdbsum/3iqz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3iqz ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/MTD_METKA MTD_METKA]] Catalyzes the reversible reduction of methenyl-H(4)MPT(+) to methylene-H(4)MPT.<ref>PMID:9151968</ref>	+	[https://www.uniprot.org/uniprot/MTD_METKA MTD_METKA] Catalyzes the reversible reduction of methenyl-H(4)MPT(+) to methylene-H(4)MPT.<ref>PMID:9151968</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Dsm 6324]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Methylenetetrahydromethanopterin dehydrogenase~~]]	+	[[Category: Methanopyrus kandleri]]
-	[[Category: Ceh~~, K E~~]]	+	[[Category: Ceh KE]]
-	[[Category: Demmer, U]]	+	[[Category: Demmer U]]
-	[[Category: Ermler, U]]	+	[[Category: Ermler U]]
-	[[Category: Moll, J]]	+	[[Category: Moll J]]
-	[[Category: Shima, S]]	+	[[Category: Shima S]]
-	[[Category: Thauer~~, R K~~]]	+	[[Category: Thauer RK]]
-	[[Category: Warkentin, E]]	+	[[Category: Warkentin E]]
-	~~[[Category: Binary complex of protein and substrate]]~~	+
-	~~[[Category: Methanogenesis]]~~	+
-	~~[[Category: One-carbon metabolism]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 03:39, 21 April 2022

2022-04-21T03:39:28Z

←Older revision		Revision as of 03:39, 21 April 2022
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	==Structure of F420 dependent methylene-tetrahydromethanopterin dehydrogenase in complex with methylene-tetrahydromethanopterin==		==Structure of F420 dependent methylene-tetrahydromethanopterin dehydrogenase in complex with methylene-tetrahydromethanopterin==
-	<StructureSection load='3iqz' size='340' side='right' caption='[[3iqz]], [[Resolution\|resolution]] 2.10Å' scene=''>	+	<StructureSection load='3iqz' size='340' side='right'caption='[[3iqz]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3iqz]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Dsm_6324 Dsm 6324]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IQZ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3IQZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3iqz]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Dsm_6324 Dsm 6324]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IQZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3IQZ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=H4M:5,10-DIMETHYLENE+TETRAHYDROMETHANOPTERIN'>H4M</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=H4M:5,10-DIMETHYLENE+TETRAHYDROMETHANOPTERIN'>H4M</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3iqe\|3iqe]], [[3iqf\|3iqf]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3iqe\|3iqe]], [[3iqf\|3iqf]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mtd ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2320 DSM 6324])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mtd ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2320 DSM 6324])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Methylenetetrahydromethanopterin_dehydrogenase Methylenetetrahydromethanopterin dehydrogenase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.5.98.1 1.5.98.1] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Methylenetetrahydromethanopterin_dehydrogenase Methylenetetrahydromethanopterin dehydrogenase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.5.98.1 1.5.98.1] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3iqz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3iqz OCA], [~~http~~://pdbe.org/3iqz PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3iqz RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3iqz PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3iqz ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3iqz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3iqz OCA], [https://pdbe.org/3iqz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3iqz RCSB], [https://www.ebi.ac.uk/pdbsum/3iqz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3iqz ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/MTD_METKA MTD_METKA]] Catalyzes the reversible reduction of methenyl-H(4)MPT(+) to methylene-H(4)MPT.<ref>PMID:9151968</ref>	+	[[https://www.uniprot.org/uniprot/MTD_METKA MTD_METKA]] Catalyzes the reversible reduction of methenyl-H(4)MPT(+) to methylene-H(4)MPT.<ref>PMID:9151968</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/iq/3iqz_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/iq/3iqz_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 36:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Dsm 6324]]		[[Category: Dsm 6324]]
		+	[[Category: Large Structures]]
	[[Category: Methylenetetrahydromethanopterin dehydrogenase]]		[[Category: Methylenetetrahydromethanopterin dehydrogenase]]
	[[Category: Ceh, K E]]		[[Category: Ceh, K E]]

OCA at 03:43, 5 August 2016

2016-08-05T03:43:33Z

←Older revision		Revision as of 03:43, 5 August 2016
Line 1:		Line 1:
		+
	==Structure of F420 dependent methylene-tetrahydromethanopterin dehydrogenase in complex with methylene-tetrahydromethanopterin==		==Structure of F420 dependent methylene-tetrahydromethanopterin dehydrogenase in complex with methylene-tetrahydromethanopterin==
	<StructureSection load='3iqz' size='340' side='right' caption='[[3iqz]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='3iqz' size='340' side='right' caption='[[3iqz]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3iqz]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Methanopyrus_kandleri Methanopyrus kandleri~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IQZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3IQZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3iqz]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Dsm_6324 Dsm 6324]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IQZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3IQZ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=H4M:5,10-DIMETHYLENE+TETRAHYDROMETHANOPTERIN'>H4M</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=H4M:5,10-DIMETHYLENE+TETRAHYDROMETHANOPTERIN'>H4M</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3iqe\|3iqe]], [[3iqf\|3iqf]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3iqe\|3iqe]], [[3iqf\|3iqf]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mtd ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2320 ~~Methanopyrus kandleri~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mtd ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2320 DSM 6324])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methylenetetrahydromethanopterin_dehydrogenase Methylenetetrahydromethanopterin dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.5.99.9 1.5.99.9] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methylenetetrahydromethanopterin_dehydrogenase Methylenetetrahydromethanopterin dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.5.98.1 1.5.98.1] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3iqz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3iqz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3iqz RCSB], [http://www.ebi.ac.uk/pdbsum/3iqz PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3iqz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3iqz OCA], [http://pdbe.org/3iqz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3iqz RCSB], [http://www.ebi.ac.uk/pdbsum/3iqz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3iqz ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 20:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3iqz ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 29:		Line 30:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 3iqz" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Methanopyrus kandleri~~]]	+	[[Category: Dsm 6324]]
	[[Category: Methylenetetrahydromethanopterin dehydrogenase]]		[[Category: Methylenetetrahydromethanopterin dehydrogenase]]
	[[Category: Ceh, K E]]		[[Category: Ceh, K E]]

OCA at 15:34, 25 December 2014

2014-12-25T15:34:23Z

←Older revision		Revision as of 15:34, 25 December 2014
Line 9:		Line 9:
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3iqz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3iqz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3iqz RCSB], [http://www.ebi.ac.uk/pdbsum/3iqz PDBsum]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3iqz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3iqz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3iqz RCSB], [http://www.ebi.ac.uk/pdbsum/3iqz PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/MTD_METKA MTD_METKA]] Catalyzes the reversible reduction of methenyl-H(4)MPT(+) to methylene-H(4)MPT.<ref>PMID:9151968</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 15:38, 18 December 2014

2014-12-18T15:38:13Z

←Older revision		Revision as of 15:38, 18 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_3iqz\| PDB=3iqz \| SCENE= }}~~	+	==Structure of F420 dependent methylene-tetrahydromethanopterin dehydrogenase in complex with methylene-tetrahydromethanopterin==
-	===Structure of F420 dependent methylene-tetrahydromethanopterin dehydrogenase in complex with methylene-tetrahydromethanopterin===	+	<StructureSection load='3iqz' size='340' side='right' caption='[[3iqz]], [[Resolution\|resolution]] 2.10Å' scene=''>
-	~~{{ABSTRACT_PUBMED_19761261}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3iqz]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanopyrus_kandleri Methanopyrus kandleri]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IQZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3IQZ FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=H4M:5,10-DIMETHYLENE+TETRAHYDROMETHANOPTERIN'>H4M</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3iqe\|3iqe]], [[3iqf\|3iqf]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">mtd ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2320 Methanopyrus kandleri])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methylenetetrahydromethanopterin_dehydrogenase Methylenetetrahydromethanopterin dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.5.99.9 1.5.99.9] </span></td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3iqz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3iqz OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3iqz RCSB], [http://www.ebi.ac.uk/pdbsum/3iqz PDBsum]</span></td></tr>
		+	</table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/iq/3iqz_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	F(420)-dependent methylenetetrahydromethanopterin (methylene-H(4)MPT) dehydrogenase (Mtd) of Methanopyrus kandleri is an enzyme of the methanogenic energy metabolism that catalyzes the reversible hydride transfer between methenyl-H(4)MPT(+) and methylene-H(4)MPT using coenzyme F(420) as hydride carrier. We determined the structures of the Mtd-methylene-H(4)MPT, Mtd-methenyl-H(4)MPT(+), and the Mtd-methenyl-H(4)MPT(+)-F(420)H(2) complexes at 2.1, 2.0, and 1.8 A resolution, respectively. The pterin-imidazolidine-phenyl ring system is present in a new extended but not planar conformation which is virtually identical in methenyl-H(4)MPT(+) and methylene-H(4)MPT at the current resolution. Both substrates methenyl-H(4)MPT(+) and F(420)H(2) bind in a face to face arrangement to an active site cleft, thereby ensuring a direct hydride transfer between their C14a and C5 atoms, respectively. The polypeptide scaffold does not reveal any significant conformational change upon binding of the bulky substrates but in turn changes the conformations of the substrate rings either to avoid clashes between certain ring atoms or to adjust the rings involved in hydride transfer for providing an optimal catalytic efficiency.

-	~~==Function==~~	+	Structural Basis of the Hydride Transfer Mechanism in F(420)-Dependent Methylenetetrahydromethanopterin Dehydrogenase.,Ceh K, Demmer U, Warkentin E, Moll J, Thauer RK, Shima S, Ermler U Biochemistry. 2009 Sep 29. PMID:19761261<ref>PMID:19761261</ref>
-	~~[[http://www.uniprot.org/uniprot/MTD_METKA MTD_METKA]] Catalyzes~~ the ~~reversible reduction of methenyl-H~~(4)~~MPT(+) to methylene~~-~~H(4)MPT~~.<ref>PMID:~~9151968~~</ref>	+

-	~~==About this Structure==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[3iqz]] is~~ a ~~6 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Methanopyrus_kandleri Methanopyrus kandleri]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3IQZ OCA].~~	+	</div>
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	~~<ref group="xtra">PMID:019761261</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Methanopyrus kandleri]]		[[Category: Methanopyrus kandleri]]
	[[Category: Methylenetetrahydromethanopterin dehydrogenase]]		[[Category: Methylenetetrahydromethanopterin dehydrogenase]]
-	[[Category: Ceh, K E.]]	+	[[Category: Ceh, K E]]
-	[[Category: Demmer, U.]]	+	[[Category: Demmer, U]]
-	[[Category: Ermler, U.]]	+	[[Category: Ermler, U]]
-	[[Category: Moll, J.]]	+	[[Category: Moll, J]]
-	[[Category: Shima, S.]]	+	[[Category: Shima, S]]
-	[[Category: Thauer, R K.]]	+	[[Category: Thauer, R K]]
-	[[Category: Warkentin, E.]]	+	[[Category: Warkentin, E]]
	[[Category: Binary complex of protein and substrate]]		[[Category: Binary complex of protein and substrate]]
	[[Category: Methanogenesis]]		[[Category: Methanogenesis]]
	[[Category: One-carbon metabolism]]		[[Category: One-carbon metabolism]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

OCA: Protected "3iqz" [edit=sysop:move=sysop]

2013-03-27T09:38:16Z

Protected "3iqz" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:38, 27 March 2013

OCA at 09:38, 27 March 2013

2013-03-27T09:38:14Z

←Older revision		Revision as of 09:38, 27 March 2013
Line 1:		Line 1:
-	{{Seed}}
-	[[Image:3iqz.png\|left\|200px]]
-
-	<!--
-	The line below this paragraph, containing "STRUCTURE_3iqz", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_3iqz\| PDB=3iqz \| SCENE= }}		{{STRUCTURE_3iqz\| PDB=3iqz \| SCENE= }}
-
	===Structure of F420 dependent methylene-tetrahydromethanopterin dehydrogenase in complex with methylene-tetrahydromethanopterin===		===Structure of F420 dependent methylene-tetrahydromethanopterin dehydrogenase in complex with methylene-tetrahydromethanopterin===
		+	{{ABSTRACT_PUBMED_19761261}}

-		+	==Function==
-	~~<!--~~	+	[[http://www.uniprot.org/uniprot/MTD_METKA MTD_METKA]] Catalyzes the reversible reduction of methenyl-H(4)MPT(+) to methylene-H(4)MPT.<ref>PMID:9151968</ref>
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_19761261}}, adds the Publication Abstract to the page~~	+
-	~~(as it appears on PubMed at~~ http://www.~~pubmed~~.~~gov), where 19761261 is~~ the ~~PubMed ID number.~~	+
-	-->	+
-	~~{{ABSTRACT_PUBMED_19761261}}~~	+

	==About this Structure==		==About this Structure==
-	~~3IQZ~~ is a 6 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Methanopyrus_kandleri Methanopyrus kandleri]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IQZ OCA].	+	[[3iqz]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Methanopyrus_kandleri Methanopyrus kandleri]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IQZ OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19761261~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019761261</ref><references group="xtra"/><references/>
	[[Category: Methanopyrus kandleri]]		[[Category: Methanopyrus kandleri]]
	[[Category: Methylenetetrahydromethanopterin dehydrogenase]]		[[Category: Methylenetetrahydromethanopterin dehydrogenase]]
Line 37:		Line 24:
	[[Category: One-carbon metabolism]]		[[Category: One-carbon metabolism]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 4 12:36:26 2009''

OCA at 10:36, 4 November 2009

2009-11-04T10:36:39Z

←Older revision		Revision as of 10:36, 4 November 2009
Line 1:		Line 1:
	{{Seed}}		{{Seed}}
-	[[Image:3iqz.~~jpg~~\|left\|200px]]	+	[[Image:3iqz.png\|left\|200px]]

	<!--		<!--
Line 38:		Line 38:
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Oct~~ ~~7 14~~:00:02 2009''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 4 12:36:26 2009''

OCA at 12:00, 7 October 2009

2009-10-07T12:00:04Z

←Older revision		Revision as of 12:00, 7 October 2009
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3iqz.jpg\|left\|200px]]

-	The ~~entry 3iqz~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3iqz", creates the "Structure Box" on the page.
		+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
		+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_3iqz\| PDB=3iqz \| SCENE= }}

-	~~Authors: Ceh, K.E., Demmer, U., Warkentin, E., Moll, J., Thauer, R.K., Shima, S., Ermler, U.~~	+	===Structure of F420 dependent methylene-tetrahydromethanopterin dehydrogenase in complex with methylene-tetrahydromethanopterin===

-	Description: Structure of F420 dependent methylene-tetrahydromethanopterin dehydrogenase in complex with methylene-tetrahydromethanopterin

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Sep 16 08~~:44:03 2009''	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_19761261}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 19761261 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_19761261}}
		+
		+	==About this Structure==
		+	3IQZ is a 6 chains structure of sequences from [http://en.wikipedia.org/wiki/Methanopyrus_kandleri Methanopyrus kandleri]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IQZ OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:19761261</ref><references group="xtra"/>
		+	[[Category: Methanopyrus kandleri]]
		+	[[Category: Methylenetetrahydromethanopterin dehydrogenase]]
		+	[[Category: Ceh, K E.]]
		+	[[Category: Demmer, U.]]
		+	[[Category: Ermler, U.]]
		+	[[Category: Moll, J.]]
		+	[[Category: Shima, S.]]
		+	[[Category: Thauer, R K.]]
		+	[[Category: Warkentin, E.]]
		+	[[Category: Binary complex of protein and substrate]]
		+	[[Category: Methanogenesis]]
		+	[[Category: One-carbon metabolism]]
		+	[[Category: Oxidoreductase]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Oct 7 14:00:02 2009''

OCA at 05:44, 16 September 2009

2009-09-16T05:44:04Z

←Older revision		Revision as of 05:44, 16 September 2009
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3iqz is ON HOLD	+	The entry 3iqz is ON HOLD until Paper Publication

-	Authors: Ceh, K. E., Demmer, U., Warkentin, E., Moll, J., Thauer, R.K., Shima, S., Ermler, U.	+	Authors: Ceh, K.E., Demmer, U., Warkentin, E., Moll, J., Thauer, R.K., Shima, S., Ermler, U.

-	Description: Structure of F420 dependent methylene-tetrahydromethanopterin dehydrogenase in complex with methylene-tetrahydromethanopterin ~~(CASP Target)~~	+	Description: Structure of F420 dependent methylene-tetrahydromethanopterin dehydrogenase in complex with methylene-tetrahydromethanopterin

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Thu~~ Sep ~~3 15~~:23:02 2009''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 16 08:44:03 2009''